AptaDB: Result

Interaction ID: 338

Aptamer sequence: GGCGTACGGTAGGCGGGGTCAACTG

Target unique ID: P15941

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_329	5TRG3	Protein	MUC1_HUMAN	27.2 nM	150 nM NaCl, 5nM MgCl2, pH 7.4	19103663

Aptamer Sequence:	GGCGTACGGTAGGCGGGGTCAACTG
The optimal secondary structure in dot-bracket notation:	(((...((.....))..))).....
The centroid secondary structure in dot-bracket notation:	(((...((.....))..))).....

The MFE structure

The Centroid structure

The mountain plot representation

Type	Detail	Type	Detail
Aptamer ID	Apta_329	Description	5TRG3
Aptamer chemistry	DNA	Length	25 nt
GC content	68.0%	Molecular weight	8,043.96 Da
Molarity of 1 μg/μl solution	124.32 μM	Number of G-quadruplexes	2
G-Score	19	Function	Targeted therapy
Sequence	GGCGTACGGTAGGCGGGGTCAACTG
Applications	Internalized by epithelial cancer cells and can be precisely activated by light to kill such cells

Type	Detail	Type	Detail
Uniprot ID	P15941	Protein name	Mucin-1 (MUC-1) (Breast carcinoma-associated antigen DF3) (Cancer antigen 15-3) (CA 15-3) (Carcinoma-associated mucin) (Episialin) (H23AG) (Krebs von den Lungen-6) (KL-6) (PEMT) (Peanut-reactive urinary mucin) (PUM) (Polymorphic epithelial mucin) (PEM) (Tumor-associated epithelial membrane antigen) (EMA) (Tumor-associated mucin) (CD antigen CD227) [Cleaved into: Mucin-1 subunit alpha (MUC1-NT) (MUC1-alpha); Mucin-1 subunit beta (MUC1-beta) (MUC1-CT)]
Gene name(s)	MUC1 PUM	Organism	Mucin-1 (MUC-1) (Breast carcinoma-associated antigen DF3) (Cancer antigen 15-3) (CA 15-3) (Carcinoma-associated mucin) (Episialin) (H23AG) (Krebs von den Lungen-6) (KL-6) (PEMT) (Peanut-reactive urinary mucin) (PUM) (Polymorphic epithelial mucin) (PEM) (Tumor-associated epithelial membrane antigen) (EMA) (Tumor-associated mucin) (CD antigen CD227) [Cleaved into: Mucin-1 subunit alpha (MUC1-NT) (MUC1-alpha); Mucin-1 subunit beta (MUC1-beta) (MUC1-CT)]
Status	reviewed in uniprot database	Length	1255
Mass	122,102	Activity regulation	N/A
Involvement in disease	MUC1/CA 15-3 is used as a serological clinical marker of breast cancer to monitor response to breast cancer treatment and disease recurrence	Catalytic activity	N/A
PDB ID(s)	1SM3;2ACM;2FO4;5T6P;5T78;6FZQ;6FZR;6KX1;6TGG;7Q4I;
Function	The alpha subunit has cell adhesive properties.

No relevant experimental diagram	Interaction ID	338
	Target type	Protein
	Target unique ID	P15941
	Activity	27.2 nM
	Binding Conditions/Buffer	150 nM NaCl, 5nM MgCl2, pH 7.4
	Assay	N/A
	PubMed ID	19103663

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_1067	DNA	GCGCGGTACCGCGCTAACGGAGGTTGCGTCCGT	57.58%
Apta_683	DNA	GCAGTACGATCGGGGGTGGGTGGATGTAGG	56.67%
Apta_546	DNA	CACGGCATGGTGGGCGTCGTG	56.00%
Apta_672	DNA	GGGGTGAAACGGGTCCCG	56.00%
Apta_1194	DNA	GGGAGAGGTGGGAGCGGGGCCAGGG	56.00%
Apta_700	DNA	GCAGGGGCGTTCGGGGGGTACCGCTGC	55.56%
Apta_701	DNA	GTACTGGCGTTCGGGGGGTACCGCTGC	55.56%
Apta_62	DNA	AGTCCGTGGTAGGGCAGGTTGGGGTGACT	55.17%
Apta_1255	DNA	GGCGCATGATCATTCGGTGGGTAAGGTGGTGGTAACGTTG	55.00%
Apta_1261	DNA	GGGCGGACGCTAGGTGGTGATGCTGTGCTACACGTGTTGT	55.00%
Apta_70	DNA	AGGTCGTAGGTTGGTGTGGTTGGGGCGACCT	54.84%
Apta_71	DNA	GGCGAGTAGGTTGGTGTGGTTGGGGCTCGCC	54.84%
Apta_74	DNA	GGACAGTAGGTTGGTGTGGTTGGGGCTGTCC	54.84%
Apta_392	DNA	GGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCT	54.55%
Apta_1195	DNA	GGGGTTGGGGGGAGGCGGGGAATGGGGG	53.57%
Apta_676	DNA	TCAGTCCCGATCAGGTGTGGGTGGCATTGG	53.33%
Apta_870	DNA	CCGGGGAATCTAGGGGAGGGCGGGTGGGTCAATTGAGCCG	52.50%
Apta_958	DNA	CGCGTGAGCGGGGAGGCGATGCCCAGGCTAACTTGACTCA	52.50%
Apta_1258	DNA	GGCGAAGGAGTCATGTAGGTGTGGTCGAGACCGCTGTGCT	52.50%
Apta_210	DNA	AGGTTGGTTGGTTGGAAT	52.00%

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